Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
dpy-27

Cell type

Cell type Class
Larvae
Cell type
L2-L3
NA
NA

Attributes by original data submitter

Sample

source_name
whole worms
strain
AM01 (dpy-27::degron::GFP)
developmental stage
L2/L3
antibody target
DPY-27
treatment
no-auxin

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq: embryos, L2/L3s and adult worms were dounce-homogenized in FA buffer (50 mM HEPES/KOH pH 7.5, 1 mM EDTA, 1% Triton X-100, 0.1% sodium deoxycholate; 150 mM NaCl) and sonicated in 0.1% sarkosyl to obtain chromatin fragments between 200 and 800 bp. 2 mg of protein extract and 3 to 10 ug of antibody was used per ChIP. ChIP-seq: half of the ChIP DNA and 30 ng of input DNA were ligated to Illumina TruSeq adapters and amplified by PCR. Library DNA between 250 and 600 bp was gel purified.

Sequencing Platform

instrument_model
NextSeq 500

ce11

Number of total reads
16561614
Reads aligned (%)
88.6
Duplicates removed (%)
11.2
Number of peaks
1447 (qval < 1E-05)

ce10

Number of total reads
16561614
Reads aligned (%)
88.6
Duplicates removed (%)
11.2
Number of peaks
1445 (qval < 1E-05)

Base call quality data from DBCLS SRA